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Package 146/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
oligo 1.2.1 Benilton Carvalho Last Changed Date: 2007-10-07 09:22:50 -0700 Last Changed Rev: 27832 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | [ OK ] | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: oligo |
Version: 1.2.1 |
Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check oligo_1.2.1.tar.gz |
RetCode: 0 |
Time: 417.7 seconds |
Status: OK |
CheckDir: oligo.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory 'E:/biocbld/bbs-2.1-bioc/meat/oligo.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'oligo/DESCRIPTION' ... OK * this is package 'oligo' version '1.2.1' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'oligo' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the name space can be loaded with stated dependencies ... OK * checking for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE justCRLMM: no visible binding for global variable 'maleIndex' LLR2conf: no visible binding for global variable 'Dst' LLR2conf: no visible binding for global variable 'HmzK3' LLR2conf: no visible binding for global variable 'lm1' LLR2conf: no visible binding for global variable 'HmzK2' LLR2conf: no visible binding for global variable 'HtzK3' LLR2conf: no visible binding for global variable 'lm2' LLR2conf: no visible binding for global variable 'HtzK2' LLR2conf: no visible binding for global variable 'SNRK' LLR2conf: no visible binding for global variable 'SNRlm' * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable compilation flags in Makevars ... OK * checking for portable use of $BLAS_LIBS ... OK * creating oligo-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating oligo-manual.tex ... OK * checking oligo-manual.tex ... OK
oligo.Rcheck/00install.out:
installing R.css in E:/biocbld/bbs-2.1-bioc/meat/oligo.Rcheck ---------- Making package oligo ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata making DLL ... making baseProfile.d from baseProfile.c making basecontent.d from basecontent.c making rma2.d from rma2.c making rma_background2.d from rma_background2.c making rma_common.d from rma_common.c making trimmed.d from trimmed.c gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c baseProfile.c -o baseProfile.o gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c basecontent.c -o basecontent.o gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c rma2.c -o rma2.o gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c rma_background2.c -o rma_background2.o gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c rma_common.c -o rma_common.o gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -Ie:/biocbld/bbs-2.1-bioc/R/include -I"e:/biocbld/bbs-2.1-bioc/R/library/preprocessCore/include" -Wall -O3 -c trimmed.c -o trimmed.o windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.1-bioc/R/include -i oligo_res.rc -o oligo_res.o gcc-sjlj -std=gnu99 -shared -s -o oligo.dll oligo.def baseProfile.o basecontent.o rma2.o rma_background2.o rma_common.o trimmed.o oligo_res.o -Le:/biocbld/bbs-2.1-bioc/R/bin -lR ... DLL made installing DLL installing R files installing inst files preparing package oligo for lazy loading Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: splines Loading required package: RSQLite Loading required package: DBI Loading required package: preprocessCore Loading required package: AnnotationDbi Loading required package: affxparser Loading required package: oligoClasses installing man source files installing indices installing help >>> Building/Updating help pages for package 'oligo' Formats: text html latex example chm DBPDInfo-class text html latex example chm FeatureSet-class text html latex example chm FeatureSetExtensions-class text html latex example chm Index-methods text html latex example chm IntensityMatrix-methods text html latex example chm MAplot-methods text html latex chm PDInfo-class text html latex example chm PDInfo-methods text html latex example chm Sequences-methods text html latex example chm SnpCallSet-methods text html latex example chm SnpCopyNumberSet-methods text html latex example chm SnpQSet-class text html latex example chm SnpQSet-methods text html latex example chm SnpSetExtensions-class text html latex example chm basecontent text html latex example chm boxplot text html latex example chm chromosome text html latex example chm crlmm text html latex example chm featureIndex text html latex example chm featureNames-methods text html latex chm genomeBuild text html latex example chm getPlatformDesign text html latex example chm hist text html latex example chm image text html latex example chm internals text html latex example chm justSNPRMA text html latex example chm kind text html latex example chm list.celfiles text html latex example chm manufacturer text html latex example chm nProbes text html latex example chm ncol text html latex example chm oligo-package text html latex example chm platform text html latex example chm platformDesign-class text html latex example chm plotDensity text html latex example chm pmAllele text html latex example chm pmPosition text html latex example chm pmStrand text html latex example chm probeNames text html latex example chm read.celfiles text html latex example chm read.xysfiles text html latex example chm rma text html latex example chm sequenceDesignMatrix text html latex example chm snprma text html latex example chm snprmaSummaries text html latex example chm Microsoft HTML Help Compiler 4.74.8702 Compiling e:\biocbld\bbs-2.1-bioc\meat\oligo.Rcheck\00_pkg_src\oligo\chm\oligo.chm Compile time: 0 minutes, 0 seconds 46 Topics 238 Local links 0 Internet links 1 Graphic Created e:\biocbld\bbs-2.1-bioc\meat\oligo.Rcheck\00_pkg_src\oligo\chm\oligo.chm, 44,242 bytes Compression decreased file by 101,861 bytes. adding MD5 sums * DONE (oligo)